1T0L

Crystal structure of human cytosolic NADP(+)-dependent isocitrate dehydrogenase in complex with NADP, isocitrate, and calcium(2+)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 1T0L

Classification: OXIDOREDUCTASE

Total Structure Weight: 190783.31

Macromolecule Entities
Molecule Chains Length Organism Details
Isocitrate dehydrogenase [NADP] cytoplasmic A, B, C, D 414 Homo sapiens EC#: 1.1.1.42 IUBMB
Gene Name(s): IDH1 Gene View PICD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAP
Query on NAP

A, B, C, D NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE (Synonym)
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ICT
Query on ICT

A, B, C, D ISOCITRIC ACID
C6 H8 O7
ODBLHEXUDAPZAU-ZAFYKAAXSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.214
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 103.30 α = 90.00
b = 86.74 β = 107.15
c = 115.77 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2004-04-10
  • Released Date: 2004-06-15
  • Deposition author(s): Xu, X., Zhao, J., Peng, B., Huang, Q., Arnold, E., Ding, J.

Revision History

  • Version 1_0: 2004-06-15

    Type: Initial release

  • Version 1_1: 2008-04-30

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance